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AAV2 VIS-Cistrome Factor Overlap in each human chromosome

This page provides a heatmap of three VIS-Factors overlap counts by chromosome to help users have a better understanding of the distribution of VIS-Factors overlap in the human genome.


AAV2 Overall Heatmap
CA: chromatin accessibility TFBS: transcription factor binding site HM: histone modification
Browse data distribution by Chromosome or Factor
*Please select the Chromosome or Factor you are interested in, the page will be automatically redirected.
 
 
VIS locations with VIS-cistrome overlap information and VIS details for each chromosome

Rank of Overlapped Records (S) DVID Location HM (S) TFBS (S) CA (S) Sum (S) HM (B) TFBS (B) CA (B) Sum (B) Case/Length Detail
1 2000003 172506360, 172866610 73 10 18 101 7223 6817 2155 16195
Case 1
|
360250
 View
View VIS-VM Association

View the association between Viral Integration Sequence (VIS) and Virus Mutation (VM) in AAV2

Contents
Description
VIS-Cistrome factor overlapping Description

The overlaps between integration site and cistrome are retrieved by genome search engine GIGGLE (Ryan M Layer et al. 2018). We built three indexs including histone modification, transcription factor binding site and chromatin accessibility, then we searched the significance of shared genomic loci (overlaps) between query VIS and Cistrome (Rongbin Zheng et al. 2019) genome interval files. So one VIS may have several overlaps with multiple Cistrome factor-related samples, the associated factor and overlap amount could indicate that the virus integration site is a potentially functional DNA element.

  • AAV2 Overall Heatmap

This heatmap is an overall statistics for AAV2 VIS-Cistrome factor overlapped records by chromosome. The darker the red, the greater the overlapped records number. The user can view specific number by moving mouse pointer.

  • Browse data by Chromosome or Factor

The user can browse AAV2 VIS-Cistrome factor overlapped records data by specific chromosome or statistics histogram for specific Cistrome factor when users click the chromosome or Cistrome factor the user are interested in.

  • VIS locations with VIS-cistrome overlap information and VIS details for each chromosome

This table showed the VIS locations with VIS-cistrome overlap information and VIS details for each chromosome, you can click green button with number which indicates the overlapped records of this VIS and 3 cistrome factor (histone modification, transcription factor binding site and chromatin accessibility) to inspect details of cistrome sample and factor information, you can click "Detail" button to inspect other information of this VIS.

Case 1
： The deletion of human fragments during the integration event.
Case 2
： Due to the experimental method/design, two viral insertion positions were provided in the literature.
Length:
~40 bp
41 bp~1000 bp
1001 bp~